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mmu_ciCnot1_694
Basic information of circular RNA
PanCircBase ID:
mmu_ciCnot1_694
mm39_Chr. Position ID:
chr8|96487256|96487950|-
Gene name:
Cnot1
Transcript:
ENSMUST00000098473.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
14
Exon/intron offsets:
0
Genomic length:
694
Exon/intron sizes in nt:
694
Flanking exon/introns:
chr8:96487253-96487950
Splice length:
694
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACTTCAGAGGGTCAACAGTGCTTTACTAAAATGGGTTAGGAATATTTACATGTAACTAGCTCATTTGAATTAAGATTTAGATGCTTAAACATTGAAAGGTAACAAGGAGAATAATTTTAGATAGGTAAGTCAGTCCTAAAGGCTGGTTTCGTTTGCTTGTTTGGTGGCATTCAGAATCAGGCACTTAGACATGGTAGGGAAGCACTCCAGCACCCAGCTGTATAACGAGTCTTGCAAGAGGTTTTTTTAAAGCAAGTGATGATTGGGCTTTGGTCATGAGTAATCTATAATCTATAATTTTGTCAAAAGTACGTTAATTTCAACTCCTTTGCAAACTTGTTGCAGTATTCTGCTAGTTATCCAAGGTATTATTTATCACTGTTAATATAAGTGATATAATTGTGTTTAGATATCAGAAGCTTGCATGCAGATGCTAAAATTCGGGAAGGGACAGTATTTGTACCCTTGCTTTGCTCTTGATATTACTAACTAAAAAAGAGCCAAGTAGTTCACTTATGAAGGTAGGCATGAGTTGACCTTTTTAAATAAGGCTTTAATTCTAAATAGAGTACTCCCTTAAAAAACTGACCAAGCAAAGAGTAGATTTTTTTTTTAATAGACATGTTTTTAGGACAGGAATTAGAAAGTAGTACAAAGAAATGGCTATTACTGGACTTTGCACGTTTCTCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACATGTTTTTAGGACAGGAA
55.29
TGAGCTAGTTACATGTAAATATTCCT
56.04
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACATGTTTTTAGGACAGGAA
55.29
GCATCTAAATCTTAATTCAAATGAGCT
57.04
161
PCR template sequence:
AGCAAAGAGTAGATTTTTTTTTTAATAGACATGTTTTTAGGACAGGAATTAGAAAGTAGTACAAAGAAATGGCTATTACTGGACTTTGCACGTTTCTCTTGTGACTTCAGAGGGTCAACAGTGCTTTACTAAAATGGGTTAGGAATATTTACATGTAACTAGCTCATTTGAATTAAGATTTAGATGCTTAAACATTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-223-3p(1), mmu-miR-19b-3p(1), mmu-miR-335-5p(1), mmu-miR-19a-3p(1), mmu-miR-467b-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACGTTTCTCTTGTGACTTCAGAGG
siRNA sets
AAGTCACAAGAGAAACGTG, TGAAGTCACAAGAGAAACG, GAAGTCACAAGAGAAACGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICNOT1_694_ORF_1
0.5525
-0.28264407
0.009306782
102
ORF sequence:
ATGTTTTTAGGACAGGAATTAGAAAGTAGTACAAAGAAATGGCTATTACTGGACTTTGCACGTTTCTCTTGTGACTTCAGAGGGTCAACAGTGCTTTACTAA
Peptide sequence:
MFLGQELESSTKKWLLLDFARFSCDFRGSTVLY
IRESfinder result
IRESfinder score
0.877507837
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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